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## L

label - Variable in class org.metaqtl.TreeNode
  The label of the cluster
Layer - Class in org.metaqtl.graph
Layer(double, double) - Constructor for class org.metaqtl.graph.Layer
  Creates a layer without any width and heigth constraints which upper left corner will be located at the point (x,y).
LAYER_HSPACE - Static variable in class org.metaqtl.graph.MetaGraphPar
  The horizontal space between layers.
LAYER_VSPACE - Static variable in class org.metaqtl.graph.MetaGraphPar
  The vertical space between layers.
leaf - Variable in class org.metaqtl.TreeNode
  The status of the node.
LEFT_LABEL - Static variable in class org.metaqtl.graph.ChromLayer
LEFT_LABEL - Static variable in class org.metaqtl.graph.ChromShape
LEGEND_BOX_CEX - Static variable in class org.metaqtl.graph.MetaGraphPar
LEGEND_FONT - Static variable in class org.metaqtl.graph.MetaGraphPar
LEGEND_GRAD_HEIGHT - Static variable in class org.metaqtl.graph.MetaGraphPar
LEGEND_GRAD_WIDTH - Static variable in class org.metaqtl.graph.MetaGraphPar
LEGEND_HSPACE - Static variable in class org.metaqtl.graph.MetaGraphPar
LEGEND_PART_HEIGHT - Static variable in class org.metaqtl.graph.MetaGraphPar
LEGEND_PART_WIDTH - Static variable in class org.metaqtl.graph.MetaGraphPar
LEGEND_SCALE_UNIT - Static variable in class org.metaqtl.graph.MetaGraphPar
legendLayer - Variable in class org.metaqtl.graph.MetaGraph
LGroup - Class in org.thalia.bio.entity
  Class Description Here
LGroup() - Constructor for class org.thalia.bio.entity.LGroup
LGroup(String, IBioEntity) - Constructor for class org.thalia.bio.entity.LGroup
LGROUP - Static variable in interface org.thalia.bio.IBioEntityTypes
  The integer code for Linkage Group entity
LGroupBean - Class in org.thalia.bio.entity.bean
  Class Description Here
LGroupBean() - Constructor for class org.thalia.bio.entity.bean.LGroupBean
LGroupBeanAdapter - Class in org.thalia.bio.entity.adapter
  Class Description Here
LGroupBeanAdapter() - Constructor for class org.thalia.bio.entity.adapter.LGroupBeanAdapter
LGroupPosition - Class in org.thalia.bio.util
  Class Description Here
LGroupPosition(double) - Constructor for class org.thalia.bio.util.LGroupPosition
LGroupPosition(double, double) - Constructor for class org.thalia.bio.util.LGroupPosition
load(Reader) - Method in class org.thalia.bio.entity.factory.BioEntityFactory
load(InputStream) - Method in class org.thalia.bio.entity.factory.BioEntityFactory
load(Reader) - Method in class org.thalia.bio.entity.factory.MapChartFactory
  TODO (non-Javadoc)
load(InputStream) - Method in class org.thalia.bio.entity.factory.MapChartFactory
  TODO (non-Javadoc)
load(Reader) - Method in class org.thalia.bio.entity.factory.MapMakerFactory
load(InputStream) - Method in class org.thalia.bio.entity.factory.MapMakerFactory
load(InputStream) - Method in class org.thalia.bio.entity.factory.MapRawFactory
load(Reader) - Method in class org.thalia.bio.entity.factory.MapRawFactory
load(Reader) - Method in class org.thalia.bio.entity.factory.MapTabFactory
load(InputStream) - Method in class org.thalia.bio.entity.factory.MapTabFactory
load(InputStream) - Method in class org.thalia.bio.entity.factory.OntologyTabFactory
load(Reader) - Method in class org.thalia.bio.entity.factory.OntologyTabFactory
  Term_id : the term identifient.
load(InputStream) - Method in class org.thalia.bio.entity.factory.XmlBioEntityFactory
load(Reader) - Method in class org.thalia.bio.entity.factory.XmlBioEntityFactory
loci() - Method in class org.thalia.bio.entity.LocusContainer
loci() - Method in interface org.thalia.bio.IBioLGroup
locus - Variable in class org.thalia.bio.entity.bean.LGroupBean
Locus - Class in org.thalia.bio.entity
Locus() - Constructor for class org.thalia.bio.entity.Locus
Locus(String, IBioEntity) - Constructor for class org.thalia.bio.entity.Locus
LOCUS - Static variable in interface org.thalia.bio.IBioEntityTypes
  The integer code for Locus entity
LocusBean - Class in org.thalia.bio.entity.bean
  Class Description Here
LocusBean() - Constructor for class org.thalia.bio.entity.bean.LocusBean
LocusBeanAdapter - Class in org.thalia.bio.entity.adapter
  Class Description Here
LocusBeanAdapter() - Constructor for class org.thalia.bio.entity.adapter.LocusBeanAdapter
LocusContainer - Class in org.thalia.bio.entity
  Class Description Here
LocusContainer() - Constructor for class org.thalia.bio.entity.LocusContainer
LocusContainer(String, IBioEntity) - Constructor for class org.thalia.bio.entity.LocusContainer
locusNames - Variable in class org.metaqtl.ChromCluster
  Ths locus name index table
LocusPositionComparator - Class in org.thalia.bio.util
  Class Description Here
LocusProperties - Class in org.metaqtl.util
LocusProperties() - Constructor for class org.metaqtl.util.LocusProperties
lod - Variable in class org.metaqtl.Qtl.QTLStats
  The lod score of the QTL.
lodDecrease - Variable in class org.metaqtl.Qtl.QTLSupport
  The value of the LOD decrease used to obtain the CI.
longForm() - Method in class org.metaqtl.main.CmdLineParser.Option

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